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Structure-specific endonuclease subunit slx4 (Synthetic lethal of unknown function protein 4)

 SLX4_SCHPO              Reviewed;         419 AA.
Q9P6M0;
02-SEP-2008, integrated into UniProtKB/Swiss-Prot.
01-OCT-2000, sequence version 1.
05-JUL-2017, entry version 83.
RecName: Full=Structure-specific endonuclease subunit slx4 {ECO:0000303|PubMed:14528010, ECO:0000312|EMBL:CAB90772.1};
AltName: Full=Synthetic lethal of unknown function protein 4 {ECO:0000250|UniProtKB:Q12098};
Name=slx4 {ECO:0000312|EMBL:CAB90772.1}; ORFNames=SPAC688.06c;
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast).
Eukaryota; Fungi; Dikarya; Ascomycota; Taphrinomycotina;
Schizosaccharomycetes; Schizosaccharomycetales;
Schizosaccharomycetaceae; Schizosaccharomyces.
NCBI_TaxID=284812;
[1] {ECO:0000312|EMBL:CAB90772.1}
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=972 / ATCC 24843;
PubMed=11859360; DOI=10.1038/nature724;
Wood V., Gwilliam R., Rajandream M.A., Lyne M.H., Lyne R., Stewart A.,
Sgouros J.G., Peat N., Hayles J., Baker S.G., Basham D., Bowman S.,
Brooks K., Brown D., Brown S., Chillingworth T., Churcher C.M.,
Collins M., Connor R., Cronin A., Davis P., Feltwell T., Fraser A.,
Gentles S., Goble A., Hamlin N., Harris D.E., Hidalgo J., Hodgson G.,
Holroyd S., Hornsby T., Howarth S., Huckle E.J., Hunt S., Jagels K.,
James K.D., Jones L., Jones M., Leather S., McDonald S., McLean J.,
Mooney P., Moule S., Mungall K.L., Murphy L.D., Niblett D., Odell C.,
Oliver K., O'Neil S., Pearson D., Quail M.A., Rabbinowitsch E.,
Rutherford K.M., Rutter S., Saunders D., Seeger K., Sharp S.,
Skelton J., Simmonds M.N., Squares R., Squares S., Stevens K.,
Taylor K., Taylor R.G., Tivey A., Walsh S.V., Warren T., Whitehead S.,
Woodward J.R., Volckaert G., Aert R., Robben J., Grymonprez B.,
Weltjens I., Vanstreels E., Rieger M., Schaefer M., Mueller-Auer S.,
Gabel C., Fuchs M., Duesterhoeft A., Fritzc C., Holzer E., Moestl D.,
Hilbert H., Borzym K., Langer I., Beck A., Lehrach H., Reinhardt R.,
Pohl T.M., Eger P., Zimmermann W., Wedler H., Wambutt R., Purnelle B.,
Goffeau A., Cadieu E., Dreano S., Gloux S., Lelaure V., Mottier S.,
Galibert F., Aves S.J., Xiang Z., Hunt C., Moore K., Hurst S.M.,
Lucas M., Rochet M., Gaillardin C., Tallada V.A., Garzon A., Thode G.,
Daga R.R., Cruzado L., Jimenez J., Sanchez M., del Rey F., Benito J.,
Dominguez A., Revuelta J.L., Moreno S., Armstrong J., Forsburg S.L.,
Cerutti L., Lowe T., McCombie W.R., Paulsen I., Potashkin J.,
Shpakovski G.V., Ussery D., Barrell B.G., Nurse P.;
"The genome sequence of Schizosaccharomyces pombe.";
Nature 415:871-880(2002).
[2] {ECO:0000305}
PROTEIN SEQUENCE OF 116-126; 313-323 AND 345-358, FUNCTION, ENZYMATIC
ACTIVITY OF THE SLX1-SLX4 COMPLEX, INTERACTION WITH SLX1, SUBCELLULAR
LOCATION, DELETION MUTANT, AND IDENTIFICATION BY MASS SPECTROMETRY.
PubMed=14528010; DOI=10.1091/mbc.E03-08-0586;
Coulon S., Gaillard P.-H.L., Chahwan C., McDonald W.H.,
Yates J.R. III, Russell P.;
"Slx1-Slx4 are subunits of a structure-specific endonuclease that
maintains ribosomal DNA in fission yeast.";
Mol. Biol. Cell 15:71-80(2004).
[3] {ECO:0000305}
FUNCTION, INTERACTION WITH SLX1, AND SUBCELLULAR LOCATION.
PubMed=16467377; DOI=10.1091/mbc.E05-11-1006;
Coulon S., Noguchi E., Noguchi C., Du L.-L., Nakamura T.M.,
Russell P.;
"Rad22Rad52-dependent repair of ribosomal DNA repeats cleaved by Slx1-
Slx4 endonuclease.";
Mol. Biol. Cell 17:2081-2090(2006).
[4] {ECO:0000305}
SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
PubMed=16823372; DOI=10.1038/nbt1222;
Matsuyama A., Arai R., Yashiroda Y., Shirai A., Kamata A., Sekido S.,
Kobayashi Y., Hashimoto A., Hamamoto M., Hiraoka Y., Horinouchi S.,
Yoshida M.;
"ORFeome cloning and global analysis of protein localization in the
fission yeast Schizosaccharomyces pombe.";
Nat. Biotechnol. 24:841-847(2006).
-!- FUNCTION: Regulatory subunit of the slx1-slx4 structure-specific
endonuclease that resolves DNA secondary structures generated
during DNA repair and recombination. Has endonuclease activity
towards branched DNA substrates, introducing single-strand cuts in
duplex DNA close to junctions with ss-DNA. Has a preference for
stem-loop (SL) and splayed arm Y structures. Introduces a single-
strand cut in duplex DNA on the 3' side of a double-strand/single-
strand junction with respect to the single-strand moving 3' to 5'
away from the junction. Plays a critical role in maintaining the
integrity of the ribosomal DNA (rDNA) loci, where it has a role in
re-starting stalled replication forks. The complex initiates
homologous recombination (HR) events, used to maintain rDNA copy
number, in the rDNA repeats that are processed by a mechanism that
requires rad22, but not rhp51. Has Holliday junction resolvase
activity in vitro. Slx4 is required for efficient processing of
DNA substrates. {ECO:0000269|PubMed:14528010,
ECO:0000269|PubMed:16467377}.
-!- SUBUNIT: Forms a heterodimer with slx1.
-!- SUBCELLULAR LOCATION: Nucleus, nucleolus
{ECO:0000269|PubMed:14528010, ECO:0000269|PubMed:16467377,
ECO:0000269|PubMed:16823372}. Note=Associates with chromatin at
rDNA repeat protrusions. {ECO:0000269|PubMed:14528010,
ECO:0000269|PubMed:16467377, ECO:0000269|PubMed:16823372}.
-!- PTM: Phosphorylated in response to DNA damage. {ECO:0000250}.
-!- MISCELLANEOUS: Simultaneous elimination of slx4 and rqh1 is
lethal. {ECO:0000269|PubMed:14528010}.
-!- SIMILARITY: Belongs to the SLX4 family. {ECO:0000305}.
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EMBL; CU329670; CAB90772.1; -; Genomic_DNA.
RefSeq; NP_594064.1; NM_001019488.2.
PDB; 4ZDT; X-ray; 2.00 A; B/D=352-419.
PDBsum; 4ZDT; -.
SMR; Q9P6M0; -.
BioGrid; 279898; 133.
MINT; MINT-4704305; -.
STRING; 4896.SPAC688.06c.1; -.
PRIDE; Q9P6M0; -.
EnsemblFungi; SPAC688.06c.1; SPAC688.06c.1:pep; SPAC688.06c.
GeneID; 2543478; -.
KEGG; spo:SPAC688.06c; -.
EuPathDB; FungiDB:SPAC688.06c; -.
PomBase; SPAC688.06c; slx4.
OrthoDB; EOG092C57CP; -.
PRO; PR:Q9P6M0; -.
Proteomes; UP000002485; Chromosome I.
GO; GO:0030874; C:nucleolar chromatin; IDA:PomBase.
GO; GO:0005634; C:nucleus; IDA:PomBase.
GO; GO:0030875; C:rDNA protrusion; IDA:PomBase.
GO; GO:0033557; C:Slx1-Slx4 complex; IDA:PomBase.
GO; GO:0017108; F:5'-flap endonuclease activity; IEA:InterPro.
GO; GO:0000727; P:double-strand break repair via break-induced replication; ISO:PomBase.
GO; GO:0036297; P:interstrand cross-link repair; IBA:GO_Central.
GO; GO:0043007; P:maintenance of rDNA; IMP:PomBase.
GO; GO:0000706; P:meiotic DNA double-strand break processing; IBA:GO_Central.
GO; GO:1902969; P:mitotic DNA replication; ISO:PomBase.
GO; GO:0031297; P:replication fork processing; TAS:PomBase.
GO; GO:0000712; P:resolution of meiotic recombination intermediates; IBA:GO_Central.
Gene3D; 1.10.720.30; -; 1.
InterPro; IPR003034; SAP_dom.
InterPro; IPR018574; Structure-sp_endonuc_su_Slx4.
Pfam; PF09494; Slx4; 1.
1: Evidence at protein level;
3D-structure; Complete proteome; Direct protein sequencing;
DNA damage; DNA recombination; DNA repair; Nucleus; Phosphoprotein;
Reference proteome.
CHAIN 1 419 Structure-specific endonuclease subunit
slx4.
/FTId=PRO_0000349134.
HELIX 352 366 {ECO:0000244|PDB:4ZDT}.
HELIX 371 377 {ECO:0000244|PDB:4ZDT}.
HELIX 384 393 {ECO:0000244|PDB:4ZDT}.
HELIX 400 410 {ECO:0000244|PDB:4ZDT}.
SEQUENCE 419 AA; 47765 MW; 00850BC9B795EA56 CRC64;
MSAEEYIEVS SSPDIFTDDD DMITIEPELN KNPKDCNSKR KRSVTECCEI RLITSKCDFE
STQQLVHHNC TGHKVHEHNL NAVDEEDFDT ENLPLLFSSF SDNESDILEP DLNTRVAEDN
DVLLSRYSKI KNSASCRNTF EHSAYHSNRE EISSSGFYYH RKPQLFEKSL EKLGNKSIEA
NRSPLIKELC ESANSTENVC FSVSTVDEIQ QRHPSAGHSI DSTCQSNSFL EGDSATHKKK
KTDNIKEFTS CEFNDRSRTL LNYAGYMDTN KNADNEAKSL KEKLENFPVE KLRAIAESYG
FKSSDSKATL IKIVESCLDA IDSRSQSKKL GKETPHDYLI TSTKTVLEFD DIVTQTHRAI
SQVVKQAKDN SVWIKILTYS AIDVEEFQLW LKRKNLNVSL DLIKSWCDKY GVLMKGSWH


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